LOCUS       NM_012128               3211 bp    mRNA    linear   PRI 12-AUG-2024
DEFINITION  Homo sapiens chloride channel accessory 4 (CLCA4), transcript
            variant 1, mRNA.
ACCESSION   NM_012128
VERSION     NM_012128.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3211)
  AUTHORS   Sala-Rabanal,M., Yurtsever,Z., Berry,K.N., McClenaghan,C.,
            Foy,A.J., Hanson,A., Steinberg,D.F., Greven,J.A., Kluender,C.E.,
            Alexander-Brett,J.M., Nichols,C.G. and Brett,T.J.
  TITLE     Modulation of TMEM16B channel activity by the calcium-activated
            chloride channel regulator 4 (CLCA4) in human cells
  JOURNAL   J Biol Chem 300 (7), 107432 (2024)
   PUBMED   38825009
  REMARK    GeneRIF: Modulation of TMEM16B channel activity by the
            calcium-activated chloride channel regulator 4 (CLCA4) in human
            cells.
REFERENCE   2  (bases 1 to 3211)
  AUTHORS   Han,J., Zhang,X., Liu,Y., Jing,L., Liu,Y.B. and Feng,L.
  TITLE     CLCA4 and MS4A12 as the significant gene biomarkers of primary
            colorectal cancer
  JOURNAL   Biosci Rep 40 (8) (2020)
   PUBMED   32797167
  REMARK    GeneRIF: CLCA4 and MS4A12 as the significant gene biomarkers of
            primary colorectal cancer.
REFERENCE   3  (bases 1 to 3211)
  AUTHORS   Mo,H.Y., Lee,J.H., Kim,M.S., Yoo,N.J. and Lee,S.H.
  TITLE     Frameshift Mutations and Loss of Expression of CLCA4 Gene are
            Frequent in Colorectal Cancers With Microsatellite Instability
  JOURNAL   Appl Immunohistochem Mol Morphol 28 (7), 489-494 (2020)
   PUBMED   32773719
  REMARK    GeneRIF: Frameshift Mutations and Loss of Expression of CLCA4 Gene
            are Frequent in Colorectal Cancers With Microsatellite Instability.
REFERENCE   4  (bases 1 to 3211)
  AUTHORS   Chen,H., Liu,Y., Jiang,C.J., Chen,Y.M., Li,H. and Liu,Q.A.
  TITLE     Calcium-Activated Chloride Channel A4 (CLCA4) Plays Inhibitory
            Roles in Invasion and Migration Through Suppressing
            Epithelial-Mesenchymal Transition via PI3K/AKT Signaling in
            Colorectal Cancer
  JOURNAL   Med Sci Monit 25, 4176-4185 (2019)
   PUBMED   31164625
  REMARK    GeneRIF: CLCA4 inhibits migration and invasion by suppressing EMT
            via PI3K/ATK signaling and predicts favorable prognosis of CRC
            which may help to distinguish potential risk of lymph node
            metastasis in CRC.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3211)
  AUTHORS   Wang,R., Xi,Q., Zhang,H., Jiang,Y., He,J., Li,L., Liu,R. and
            Zhang,H.
  TITLE     Chloride Channel Accessory 4 (CLCA4) Gene Polymorphisms and
            Non-Obstructive Azoospermia: A Case-Control Study
  JOURNAL   Med Sci Monit 25, 2043-2048 (2019)
   PUBMED   30887952
  REMARK    GeneRIF: Six SNPs, c.390C>T (rs190628533), c.1474A>G (rs2231599),
            c.2105C>G (rs757773924), c.2371A>T) (rs759981524), c.956G>A
            (rs763334876), and c.895T>C (rs79822589) were identified in the
            study group of cases in Non-Obstructive Azoospermia but not in
            control subjects. The allele and genotype frequencies of the six
            SNPs were not significantly different between the study group and
            the controls.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3211)
  AUTHORS   Yu,Y., Walia,V. and Elble,R.C.
  TITLE     Loss of CLCA4 promotes epithelial-to-mesenchymal transition in
            breast cancer cells
  JOURNAL   PLoS One 8 (12), e83943 (2013)
   PUBMED   24386311
  REMARK    GeneRIF: CLCA4 and CLCA2 play complementary but distinct roles in
            epithelial differentiation
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3211)
  AUTHORS   Kolbe,E.W., Tamm,S., Hedtfeld,S., Becker,T., Tummler,B. and
            Stanke,F.
  TITLE     CLCA4 variants determine the manifestation of the cystic fibrosis
            basic defect in the intestine
  JOURNAL   Eur J Hum Genet 21 (6), 691-694 (2013)
   PUBMED   23073314
  REMARK    GeneRIF: CLCA4 modulates the capability to express residual
            chloride secretion in colonic tissue.
REFERENCE   8  (bases 1 to 3211)
  AUTHORS   Ritzka,M., Stanke,F., Jansen,S., Gruber,A.D., Pusch,L., Woelfl,S.,
            Veeze,H.J., Halley,D.J. and Tummler,B.
  TITLE     The CLCA gene locus as a modulator of the gastrointestinal basic
            defect in cystic fibrosis
  JOURNAL   Hum Genet 115 (6), 483-491 (2004)
   PUBMED   15490240
  REMARK    GeneRIF: CLCA1 and CLCA4 may have roles as modulators of the
            gastrointestinal basic defect in cystic fibrosis
REFERENCE   9  (bases 1 to 3211)
  AUTHORS   Pauli,B.U., Abdel-Ghany,M., Cheng,H.C., Gruber,A.D., Archibald,H.A.
            and Elble,R.C.
  TITLE     Molecular characteristics and functional diversity of CLCA family
            members
  JOURNAL   Clin Exp Pharmacol Physiol 27 (11), 901-905 (2000)
   PUBMED   11071307
  REMARK    Review article
REFERENCE   10 (bases 1 to 3211)
  AUTHORS   Agnel,M., Vermat,T. and Culouscou,J.M.
  TITLE     Identification of three novel members of the calcium-dependent
            chloride channel (CaCC) family predominantly expressed in the
            digestive tract and trachea
  JOURNAL   FEBS Lett 455 (3), 295-301 (1999)
   PUBMED   10437792
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA761219.1 and AY358470.1.
            
            On Nov 23, 2018 this sequence version replaced NM_012128.3.
            
            Summary: The protein encoded by this gene belongs to the calcium
            sensitive chloride conductance protein family. To date, all members
            of this gene family map to the same site on chromosome 1p31-p22 and
            share high degrees of homology in size, sequence and predicted
            structure, but differ significantly in their tissue distributions.
            Alternative splicing results in multiple transcript variants, only
            one of which is thought to be protein coding. [provided by RefSeq,
            Dec 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK000072.1, SRR1660809.262440.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1966682, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000370563.3/ ENSP00000359594.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-18                DA761219.1         65-82
            19-3211             AY358470.1         1-3193
FEATURES             Location/Qualifiers
     source          1..3211
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p22.3"
     gene            1..3211
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /note="chloride channel accessory 4"
                     /db_xref="GeneID:22802"
                     /db_xref="HGNC:HGNC:2018"
                     /db_xref="MIM:616857"
     exon            1..201
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     CDS             43..2802
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /note="chloride channel regulator 4; chloride channel,
                     calcium activated, family member 4; calcium-activated
                     chloride channel regulator 4; caCC-2; hCLCA4; hCaCC-2;
                     calcium-activated chloride channel protein 2;
                     calcium-activated chloride channel family member 4"
                     /codon_start=1
                     /product="calcium-activated chloride channel regulator 4
                     precursor"
                     /protein_id="NP_036260.2"
                     /db_xref="CCDS:CCDS41355.1"
                     /db_xref="GeneID:22802"
                     /db_xref="HGNC:HGNC:2018"
                     /db_xref="MIM:616857"
                     /translation="MGLFRGFVFLLVLCLLHQSNTSFIKLNNNGFEDIVIVIDPSVPE
                     DEKIIEQIEDMVTTASTYLFEATEKRFFFKNVSILIPENWKENPQYKRPKHENHKHAD
                     VIVAPPTLPGRDEPYTKQFTECGEKGEYIHFTPDLLLGKKQNEYGPPGKLFVHEWAHL
                     RWGVFDEYNEDQPFYRAKSKKIEATRCSAGISGRNRVYKCQGGSCLSRACRIDSTTKL
                     YGKDCQFFPDKVQTEKASIMFMQSIDSVVEFCNEKTHNQEAPSLQNIKCNFRSTWEVI
                     SNSEDFKNTIPMVTPPPPPVFSLLKISQRIVCLVLDKSGSMGGKDRLNRMNQAAKHFL
                     LQTVENGSWVGMVHFDSTATIVNKLIQIKSSDERNTLMAGLPTYPLGGTSICSGIKYA
                     FQVIGELHSQLDGSEVLLLTDGEDNTASSCIDEVKQSGAIVHFIALGRAADEAVIEMS
                     KITGGSHFYVSDEAQNNGLIDAFGALTSGNTDLSQKSLQLESKGLTLNSNAWMNDTVI
                     IDSTVGKDTFFLITWNSLPPSISLWDPSGTIMENFTVDATSKMAYLSIPGTAKVGTWA
                     YNLQAKANPETLTITVTSRAANSSVPPITVNAKMNKDVNSFPSPMIVYAEILQGYVPV
                     LGANVTAFIESQNGHTEVLELLDNGAGADSFKNDGVYSRYFTAYTENGRYSLKVRAHG
                     GANTARLKLRPPLNRAAYIPGWVVNGEIEANPPRPEIDEDTQTTLEDFSRTASGGAFV
                     VSQVPSLPLPDQYPPSQITDLDATVHEDKIILTWTAPGDNFDVGKVQRYIIRISASIL
                     DLRDSFDDALQVNTTDLSPKEANSKESFAFKPENISEENATHIFIAIKSIDKSNLTSK
                     VSNIAQVTLFIPQANPDDIDPTPTPTPTPTPDKSHNSGVNISTLVLSVIGSVVIVNFI
                     LSTTI"
     exon            202..342
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            343..490
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            491..599
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            600..777
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            778..996
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            997..1224
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1225..1402
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1403..1509
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1510..1725
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1726..1993
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1994..2164
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            2165..2398
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     exon            2399..3211
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3189..3194
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /note="hexamer: AATAAA"
     polyA_site      3211
                     /gene="CLCA4"
                     /gene_synonym="CaCC; CaCC2"
                     /note="major polyA site"
ORIGIN      
        1 gaacaaacca acatttgagc caggaataac tagagaggaa caatggggtt attcagaggt
       61 tttgttttcc tcttagttct gtgcctgctg caccagtcaa atacttcctt cattaagctg
      121 aataataatg gctttgaaga tattgtcatt gttatagatc ctagtgtgcc agaagatgaa
      181 aaaataattg aacaaataga ggatatggtg actacagctt ctacgtacct gtttgaagcc
      241 acagaaaaaa gatttttttt caaaaatgta tctatattaa ttcctgagaa ttggaaggaa
      301 aatcctcagt acaaaaggcc aaaacatgaa aaccataaac atgctgatgt tatagttgca
      361 ccacctacac tcccaggtag agatgaacca tacaccaagc agttcacaga atgtggagag
      421 aaaggcgaat acattcactt cacccctgac cttctacttg gaaaaaaaca aaatgaatat
      481 ggaccaccag gcaaactgtt tgtccatgag tgggctcacc tccggtgggg agtgtttgat
      541 gagtacaatg aagatcagcc tttctaccgt gctaagtcaa aaaaaatcga agcaacaagg
      601 tgttccgcag gtatctctgg tagaaataga gtttataagt gtcaaggagg cagctgtctt
      661 agtagagcat gcagaattga ttctacaaca aaactgtatg gaaaagattg tcaattcttt
      721 cctgataaag tacaaacaga aaaagcatcc ataatgttta tgcaaagtat tgattctgtt
      781 gttgaatttt gtaacgaaaa aacccataat caagaagctc caagcctaca aaacataaag
      841 tgcaatttta gaagtacatg ggaggtgatt agcaattctg aggattttaa aaacaccata
      901 cccatggtga caccacctcc tccacctgtc ttctcattgc tgaagatcag tcaaagaatt
      961 gtgtgcttag ttcttgataa gtctggaagc atggggggta aggaccgcct aaatcgaatg
     1021 aatcaagcag caaaacattt cctgctgcag actgttgaaa atggatcctg ggtggggatg
     1081 gttcactttg atagtactgc cactattgta aataagctaa tccaaataaa aagcagtgat
     1141 gaaagaaaca cactcatggc aggattacct acatatcctc tgggaggaac ttccatctgc
     1201 tctggaatta aatatgcatt tcaggtgatt ggagagctac attcccaact cgatggatcc
     1261 gaagtactgc tgctgactga tggggaggat aacactgcaa gttcttgtat tgatgaagtg
     1321 aaacaaagtg gggccattgt tcattttatt gctttgggaa gagctgctga tgaagcagta
     1381 atagagatga gcaagataac aggaggaagt catttttatg tttcagatga agctcagaac
     1441 aatggcctca ttgatgcttt tggggctctt acatcaggaa atactgatct ctcccagaag
     1501 tcccttcagc tcgaaagtaa gggattaaca ctgaatagta atgcctggat gaacgacact
     1561 gtcataattg atagtacagt gggaaaggac acgttctttc tcatcacatg gaacagtctg
     1621 cctcccagta tttctctctg ggatcccagt ggaacaataa tggaaaattt cacagtggat
     1681 gcaacttcca aaatggccta tctcagtatt ccaggaactg caaaggtggg cacttgggca
     1741 tacaatcttc aagccaaagc gaacccagaa acattaacta ttacagtaac ttctcgagca
     1801 gcaaattctt ctgtgcctcc aatcacagtg aatgctaaaa tgaataagga cgtaaacagt
     1861 ttccccagcc caatgattgt ttacgcagaa attctacaag gatatgtacc tgttcttgga
     1921 gccaatgtga ctgctttcat tgaatcacag aatggacata cagaagtttt ggaacttttg
     1981 gataatggtg caggcgctga ttctttcaag aatgatggag tctactccag gtattttaca
     2041 gcatatacag aaaatggcag atatagctta aaagttcggg ctcatggagg agcaaacact
     2101 gccaggctaa aattacggcc tccactgaat agagccgcgt acataccagg ctgggtagtg
     2161 aacggggaaa ttgaagcaaa cccgccaaga cctgaaattg atgaggatac tcagaccacc
     2221 ttggaggatt tcagccgaac agcatccgga ggtgcatttg tggtatcaca agtcccaagc
     2281 cttcccttgc ctgaccaata cccaccaagt caaatcacag accttgatgc cacagttcat
     2341 gaggataaga ttattcttac atggacagca ccaggagata attttgatgt tggaaaagtt
     2401 caacgttata tcataagaat aagtgcaagt attcttgatc taagagacag ttttgatgat
     2461 gctcttcaag taaatactac tgatctgtca ccaaaggagg ccaactccaa ggaaagcttt
     2521 gcatttaaac cagaaaatat ctcagaagaa aatgcaaccc acatatttat tgccattaaa
     2581 agtatagata aaagcaattt gacatcaaaa gtatccaaca ttgcacaagt aactttgttt
     2641 atccctcaag caaatcctga tgacattgat cctacaccta ctcctactcc tactcctact
     2701 cctgataaaa gtcataattc tggagttaat atttctacgc tggtattgtc tgtgattggg
     2761 tctgttgtaa ttgttaactt tattttaagt accaccattt gaaccttaac gaagaaaaaa
     2821 atcttcaagt agacctagaa gagagtttta aaaaacaaaa caatgtaagt aaaggatatt
     2881 tctgaatctt aaaattcatc ccatgtgtga tcataaactc ataaaaataa ttttaagatg
     2941 tcggaaaagg atactttgat taaataaaaa cactcatgga tatgtaaaaa ctgtcaagat
     3001 taaaatttaa tagtttcatt tatttgttat tttatttgta agaaatagtg atgaacaaag
     3061 atcctttttc atactgatac ctggttgtat attatttgat gcaacagttt tctgaaatga
     3121 tatttcaaat tgcatcaaga aattaaaatc atctatctga gtagtcaaaa tacaagtaaa
     3181 ggagagcaaa taaacaacat ttggaaaaaa a
//
